Test and training sets: Complexes from the ComplexPortal are split randomly into test and training sets. Due to redundancy in benchmark and to ensure disjoint test and training sets, complexes with pairs of proteins that overlap between test and training are removed. Positive ppis for both test and training sets are then generated by all pairs present in the same complex. Negative ppis for both test and training are generated by all pairs in separate complexes.
List of training complexes: ComplexPortal_reduced_20230309.train.txt
List of test complexes: ComplexPortal_reduced_20230309.test.txt
List of train positive ppis: ComplexPortal_reduced_20230309.train_ppis.txt
List of train negative ppis: ComplexPortal_reduced_20230309.neg_train_ppis.txt
List of test positive ppis: ComplexPortal_reduced_20230309.test_ppis.txt
List of test negative ppis : ComplexPortal_reduced_20230309.neg_test_ppis.txt
hu.MAP3 feature matrix containing all features used for training.
acc1 and acc2 columns are uniprot identifiers of pairs of proteins. All other columns are features representing evidence of the two proteins interacting.
